Multiple sequence alignment - TraesCS7A01G526300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7A01G526300 chr7A 100.000 2579 0 0 1 2579 708264632 708262054 0.000000e+00 4763
1 TraesCS7A01G526300 chr7A 98.779 819 9 1 240 1057 60098166 60097348 0.000000e+00 1456
2 TraesCS7A01G526300 chr6B 97.569 2345 51 3 240 2579 388358807 388356464 0.000000e+00 4010
3 TraesCS7A01G526300 chr6B 97.142 2344 61 6 240 2578 388166755 388164413 0.000000e+00 3952
4 TraesCS7A01G526300 chr2B 97.355 2344 56 5 240 2579 751961572 751959231 0.000000e+00 3980
5 TraesCS7A01G526300 chr2B 99.170 241 2 0 3 243 449195115 449195355 3.940000e-118 435
6 TraesCS7A01G526300 chr7B 97.014 2344 65 2 240 2579 531995168 531997510 0.000000e+00 3936
7 TraesCS7A01G526300 chr3A 96.804 2347 64 9 240 2579 718993939 718991597 0.000000e+00 3908
8 TraesCS7A01G526300 chr3B 95.949 2345 89 5 240 2579 575745889 575743546 0.000000e+00 3799
9 TraesCS7A01G526300 chr4B 95.694 2276 85 9 305 2576 547038351 547040617 0.000000e+00 3648
10 TraesCS7A01G526300 chr5D 95.815 2222 84 8 361 2579 244894244 244896459 0.000000e+00 3579
11 TraesCS7A01G526300 chr4D 97.759 1785 36 3 799 2579 398050710 398048926 0.000000e+00 3072
12 TraesCS7A01G526300 chr1D 99.177 243 2 0 1 243 298347566 298347808 3.050000e-119 438
13 TraesCS7A01G526300 chrUn 99.170 241 2 0 3 243 170987475 170987715 3.940000e-118 435
14 TraesCS7A01G526300 chrUn 99.170 241 2 0 3 243 264056980 264057220 3.940000e-118 435
15 TraesCS7A01G526300 chrUn 99.170 241 2 0 3 243 462273502 462273262 3.940000e-118 435
16 TraesCS7A01G526300 chr7D 99.170 241 2 0 3 243 381931516 381931276 3.940000e-118 435
17 TraesCS7A01G526300 chr7D 99.170 241 2 0 3 243 606869387 606869147 3.940000e-118 435
18 TraesCS7A01G526300 chr7D 98.765 243 3 0 1 243 203548885 203549127 1.420000e-117 433
19 TraesCS7A01G526300 chr3D 98.367 245 4 0 1 245 193378342 193378098 5.100000e-117 431


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G526300 chr7A 708262054 708264632 2578 True 4763 4763 100.000 1 2579 1 chr7A.!!$R2 2578
1 TraesCS7A01G526300 chr7A 60097348 60098166 818 True 1456 1456 98.779 240 1057 1 chr7A.!!$R1 817
2 TraesCS7A01G526300 chr6B 388356464 388358807 2343 True 4010 4010 97.569 240 2579 1 chr6B.!!$R2 2339
3 TraesCS7A01G526300 chr6B 388164413 388166755 2342 True 3952 3952 97.142 240 2578 1 chr6B.!!$R1 2338
4 TraesCS7A01G526300 chr2B 751959231 751961572 2341 True 3980 3980 97.355 240 2579 1 chr2B.!!$R1 2339
5 TraesCS7A01G526300 chr7B 531995168 531997510 2342 False 3936 3936 97.014 240 2579 1 chr7B.!!$F1 2339
6 TraesCS7A01G526300 chr3A 718991597 718993939 2342 True 3908 3908 96.804 240 2579 1 chr3A.!!$R1 2339
7 TraesCS7A01G526300 chr3B 575743546 575745889 2343 True 3799 3799 95.949 240 2579 1 chr3B.!!$R1 2339
8 TraesCS7A01G526300 chr4B 547038351 547040617 2266 False 3648 3648 95.694 305 2576 1 chr4B.!!$F1 2271
9 TraesCS7A01G526300 chr5D 244894244 244896459 2215 False 3579 3579 95.815 361 2579 1 chr5D.!!$F1 2218
10 TraesCS7A01G526300 chr4D 398048926 398050710 1784 True 3072 3072 97.759 799 2579 1 chr4D.!!$R1 1780

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
238 239 0.029567 TGGTAAGGTTTTGCGCGTTG 59.970 50.000 8.43 0.0 0.00 4.10 F
986 993 2.932614 GCGAGCAGAGCTGAAAAAGATA 59.067 45.455 0.85 0.0 39.88 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1216 1224 7.807680 ACTTCGTTAGGATTGAAGAATTGTTC 58.192 34.615 8.35 8.35 41.21 3.18 R
2448 2463 2.481952 CTCAAACTGAAGCTTTCCGAGG 59.518 50.000 0.00 0.00 0.00 4.63 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.675404 AACTACGTGCTGGCACTC 57.325 55.556 20.97 0.00 44.16 3.51
18 19 1.745890 AACTACGTGCTGGCACTCA 59.254 52.632 20.97 9.35 44.16 3.41
19 20 0.105964 AACTACGTGCTGGCACTCAA 59.894 50.000 20.97 7.50 44.16 3.02
20 21 0.321671 ACTACGTGCTGGCACTCAAT 59.678 50.000 20.97 8.47 44.16 2.57
21 22 1.002366 CTACGTGCTGGCACTCAATC 58.998 55.000 20.97 0.00 44.16 2.67
22 23 0.320050 TACGTGCTGGCACTCAATCA 59.680 50.000 20.97 0.36 44.16 2.57
23 24 0.534877 ACGTGCTGGCACTCAATCAA 60.535 50.000 20.97 0.00 44.16 2.57
24 25 0.167470 CGTGCTGGCACTCAATCAAG 59.833 55.000 20.97 2.10 44.16 3.02
25 26 1.242076 GTGCTGGCACTCAATCAAGT 58.758 50.000 17.19 0.00 43.12 3.16
26 27 2.426522 GTGCTGGCACTCAATCAAGTA 58.573 47.619 17.19 0.00 43.12 2.24
27 28 2.417933 GTGCTGGCACTCAATCAAGTAG 59.582 50.000 17.19 0.00 43.12 2.57
28 29 2.038952 TGCTGGCACTCAATCAAGTAGT 59.961 45.455 0.00 0.00 0.00 2.73
29 30 3.260632 TGCTGGCACTCAATCAAGTAGTA 59.739 43.478 0.00 0.00 0.00 1.82
30 31 3.868077 GCTGGCACTCAATCAAGTAGTAG 59.132 47.826 0.00 0.00 0.00 2.57
31 32 3.861840 TGGCACTCAATCAAGTAGTAGC 58.138 45.455 0.00 0.00 0.00 3.58
32 33 2.860735 GGCACTCAATCAAGTAGTAGCG 59.139 50.000 0.00 0.00 0.00 4.26
33 34 2.282820 GCACTCAATCAAGTAGTAGCGC 59.717 50.000 0.00 0.00 0.00 5.92
34 35 3.775202 CACTCAATCAAGTAGTAGCGCT 58.225 45.455 17.26 17.26 0.00 5.92
35 36 3.549471 CACTCAATCAAGTAGTAGCGCTG 59.451 47.826 22.90 1.35 0.00 5.18
36 37 3.119291 CTCAATCAAGTAGTAGCGCTGG 58.881 50.000 22.90 0.44 0.00 4.85
37 38 1.594862 CAATCAAGTAGTAGCGCTGGC 59.405 52.381 22.90 13.15 40.37 4.85
38 39 0.824109 ATCAAGTAGTAGCGCTGGCA 59.176 50.000 22.90 0.00 43.41 4.92
39 40 0.108804 TCAAGTAGTAGCGCTGGCAC 60.109 55.000 22.90 10.91 43.41 5.01
40 41 1.153823 AAGTAGTAGCGCTGGCACG 60.154 57.895 22.90 5.33 43.41 5.34
41 42 1.874345 AAGTAGTAGCGCTGGCACGT 61.874 55.000 22.90 9.84 43.41 4.49
42 43 1.872679 GTAGTAGCGCTGGCACGTC 60.873 63.158 22.90 5.41 43.41 4.34
43 44 2.337246 TAGTAGCGCTGGCACGTCA 61.337 57.895 22.90 0.00 43.41 4.35
44 45 2.537792 TAGTAGCGCTGGCACGTCAC 62.538 60.000 22.90 7.46 43.41 3.67
45 46 3.680786 TAGCGCTGGCACGTCACT 61.681 61.111 22.90 0.00 43.41 3.41
46 47 3.626680 TAGCGCTGGCACGTCACTC 62.627 63.158 22.90 0.00 43.41 3.51
49 50 4.664677 GCTGGCACGTCACTCGGT 62.665 66.667 0.00 0.00 44.69 4.69
50 51 2.734723 CTGGCACGTCACTCGGTG 60.735 66.667 0.00 0.00 44.69 4.94
51 52 4.293648 TGGCACGTCACTCGGTGG 62.294 66.667 4.52 0.00 44.69 4.61
53 54 4.961511 GCACGTCACTCGGTGGCA 62.962 66.667 8.90 0.00 38.14 4.92
54 55 2.279851 CACGTCACTCGGTGGCAA 60.280 61.111 8.90 0.00 38.14 4.52
55 56 1.667830 CACGTCACTCGGTGGCAAT 60.668 57.895 8.90 0.00 38.14 3.56
56 57 1.070786 ACGTCACTCGGTGGCAATT 59.929 52.632 8.90 0.00 38.14 2.32
57 58 0.534203 ACGTCACTCGGTGGCAATTT 60.534 50.000 8.90 0.00 38.14 1.82
58 59 0.165944 CGTCACTCGGTGGCAATTTC 59.834 55.000 8.90 0.00 38.14 2.17
59 60 1.523758 GTCACTCGGTGGCAATTTCT 58.476 50.000 4.10 0.00 38.14 2.52
60 61 1.464997 GTCACTCGGTGGCAATTTCTC 59.535 52.381 4.10 0.00 38.14 2.87
61 62 0.804989 CACTCGGTGGCAATTTCTCC 59.195 55.000 0.00 0.00 0.00 3.71
62 63 0.693049 ACTCGGTGGCAATTTCTCCT 59.307 50.000 0.00 0.00 0.00 3.69
63 64 1.073923 ACTCGGTGGCAATTTCTCCTT 59.926 47.619 0.00 0.00 0.00 3.36
64 65 2.304761 ACTCGGTGGCAATTTCTCCTTA 59.695 45.455 0.00 0.00 0.00 2.69
65 66 2.939103 CTCGGTGGCAATTTCTCCTTAG 59.061 50.000 0.00 0.00 0.00 2.18
66 67 2.017049 CGGTGGCAATTTCTCCTTAGG 58.983 52.381 0.00 0.00 0.00 2.69
67 68 1.751351 GGTGGCAATTTCTCCTTAGGC 59.249 52.381 0.00 0.00 0.00 3.93
68 69 1.401905 GTGGCAATTTCTCCTTAGGCG 59.598 52.381 0.00 0.00 0.00 5.52
69 70 0.382158 GGCAATTTCTCCTTAGGCGC 59.618 55.000 0.00 0.00 0.00 6.53
70 71 1.094785 GCAATTTCTCCTTAGGCGCA 58.905 50.000 10.83 0.00 0.00 6.09
71 72 1.678101 GCAATTTCTCCTTAGGCGCAT 59.322 47.619 10.83 3.98 0.00 4.73
72 73 2.542411 GCAATTTCTCCTTAGGCGCATG 60.542 50.000 10.83 0.00 0.00 4.06
73 74 2.684881 CAATTTCTCCTTAGGCGCATGT 59.315 45.455 10.83 0.00 0.00 3.21
74 75 2.024176 TTTCTCCTTAGGCGCATGTC 57.976 50.000 10.83 0.00 0.00 3.06
75 76 1.195115 TTCTCCTTAGGCGCATGTCT 58.805 50.000 10.83 0.00 0.00 3.41
76 77 0.747255 TCTCCTTAGGCGCATGTCTC 59.253 55.000 10.83 0.00 0.00 3.36
77 78 0.461548 CTCCTTAGGCGCATGTCTCA 59.538 55.000 10.83 0.00 0.00 3.27
78 79 0.461548 TCCTTAGGCGCATGTCTCAG 59.538 55.000 10.83 0.00 0.00 3.35
79 80 1.156645 CCTTAGGCGCATGTCTCAGC 61.157 60.000 10.83 0.00 0.00 4.26
80 81 0.460811 CTTAGGCGCATGTCTCAGCA 60.461 55.000 10.83 0.00 0.00 4.41
81 82 0.036483 TTAGGCGCATGTCTCAGCAA 60.036 50.000 10.83 0.00 0.00 3.91
82 83 0.740868 TAGGCGCATGTCTCAGCAAC 60.741 55.000 10.83 0.00 0.00 4.17
83 84 2.327343 GGCGCATGTCTCAGCAACA 61.327 57.895 10.83 0.00 0.00 3.33
84 85 1.154338 GCGCATGTCTCAGCAACAC 60.154 57.895 0.30 0.00 0.00 3.32
85 86 1.844771 GCGCATGTCTCAGCAACACA 61.845 55.000 0.30 0.00 0.00 3.72
86 87 0.587768 CGCATGTCTCAGCAACACAA 59.412 50.000 0.00 0.00 0.00 3.33
87 88 1.002576 CGCATGTCTCAGCAACACAAA 60.003 47.619 0.00 0.00 0.00 2.83
88 89 2.541383 CGCATGTCTCAGCAACACAAAA 60.541 45.455 0.00 0.00 0.00 2.44
89 90 2.791004 GCATGTCTCAGCAACACAAAAC 59.209 45.455 0.00 0.00 0.00 2.43
90 91 2.823196 TGTCTCAGCAACACAAAACG 57.177 45.000 0.00 0.00 0.00 3.60
91 92 2.351455 TGTCTCAGCAACACAAAACGA 58.649 42.857 0.00 0.00 0.00 3.85
92 93 2.351418 TGTCTCAGCAACACAAAACGAG 59.649 45.455 0.00 0.00 0.00 4.18
93 94 1.939934 TCTCAGCAACACAAAACGAGG 59.060 47.619 0.00 0.00 0.00 4.63
94 95 1.002468 CTCAGCAACACAAAACGAGGG 60.002 52.381 0.00 0.00 0.00 4.30
95 96 0.738389 CAGCAACACAAAACGAGGGT 59.262 50.000 0.00 0.00 0.00 4.34
96 97 1.134175 CAGCAACACAAAACGAGGGTT 59.866 47.619 0.00 0.00 38.22 4.11
98 99 2.159296 AGCAACACAAAACGAGGGTTTC 60.159 45.455 0.00 0.00 45.35 2.78
110 111 2.740452 GAGGGTTTCGCTCGTTATAGG 58.260 52.381 0.00 0.00 34.01 2.57
111 112 2.360165 GAGGGTTTCGCTCGTTATAGGA 59.640 50.000 0.00 0.00 34.01 2.94
112 113 2.100418 AGGGTTTCGCTCGTTATAGGAC 59.900 50.000 0.00 0.00 0.00 3.85
113 114 2.100418 GGGTTTCGCTCGTTATAGGACT 59.900 50.000 0.00 0.00 0.00 3.85
114 115 3.429960 GGGTTTCGCTCGTTATAGGACTT 60.430 47.826 0.00 0.00 0.00 3.01
115 116 3.550678 GGTTTCGCTCGTTATAGGACTTG 59.449 47.826 0.00 0.00 0.00 3.16
116 117 4.418392 GTTTCGCTCGTTATAGGACTTGA 58.582 43.478 0.00 0.00 0.00 3.02
117 118 3.687572 TCGCTCGTTATAGGACTTGAC 57.312 47.619 0.00 0.00 0.00 3.18
118 119 2.357009 TCGCTCGTTATAGGACTTGACC 59.643 50.000 0.00 0.00 0.00 4.02
119 120 2.098607 CGCTCGTTATAGGACTTGACCA 59.901 50.000 0.00 0.00 0.00 4.02
120 121 3.428452 CGCTCGTTATAGGACTTGACCAA 60.428 47.826 0.00 0.00 0.00 3.67
121 122 4.501071 GCTCGTTATAGGACTTGACCAAA 58.499 43.478 0.00 0.00 0.00 3.28
122 123 4.329256 GCTCGTTATAGGACTTGACCAAAC 59.671 45.833 0.00 0.00 0.00 2.93
123 124 5.471556 TCGTTATAGGACTTGACCAAACA 57.528 39.130 0.00 0.00 0.00 2.83
124 125 6.045072 TCGTTATAGGACTTGACCAAACAT 57.955 37.500 0.00 0.00 0.00 2.71
125 126 6.103997 TCGTTATAGGACTTGACCAAACATC 58.896 40.000 0.00 0.00 0.00 3.06
126 127 6.070995 TCGTTATAGGACTTGACCAAACATCT 60.071 38.462 0.00 0.00 0.00 2.90
127 128 6.255887 CGTTATAGGACTTGACCAAACATCTC 59.744 42.308 0.00 0.00 0.00 2.75
128 129 5.762179 ATAGGACTTGACCAAACATCTCA 57.238 39.130 0.00 0.00 0.00 3.27
129 130 3.744660 AGGACTTGACCAAACATCTCAC 58.255 45.455 0.00 0.00 0.00 3.51
130 131 2.480419 GGACTTGACCAAACATCTCACG 59.520 50.000 0.00 0.00 0.00 4.35
131 132 3.390135 GACTTGACCAAACATCTCACGA 58.610 45.455 0.00 0.00 0.00 4.35
132 133 3.131396 ACTTGACCAAACATCTCACGAC 58.869 45.455 0.00 0.00 0.00 4.34
133 134 2.900716 TGACCAAACATCTCACGACA 57.099 45.000 0.00 0.00 0.00 4.35
134 135 2.479837 TGACCAAACATCTCACGACAC 58.520 47.619 0.00 0.00 0.00 3.67
135 136 1.455786 GACCAAACATCTCACGACACG 59.544 52.381 0.00 0.00 0.00 4.49
136 137 1.067974 ACCAAACATCTCACGACACGA 59.932 47.619 0.00 0.00 0.00 4.35
137 138 1.721389 CCAAACATCTCACGACACGAG 59.279 52.381 0.00 0.00 0.00 4.18
138 139 1.125021 CAAACATCTCACGACACGAGC 59.875 52.381 0.00 0.00 0.00 5.03
139 140 0.313987 AACATCTCACGACACGAGCA 59.686 50.000 0.00 0.00 0.00 4.26
140 141 0.109551 ACATCTCACGACACGAGCAG 60.110 55.000 0.00 0.00 0.00 4.24
141 142 0.169009 CATCTCACGACACGAGCAGA 59.831 55.000 0.00 0.00 0.00 4.26
142 143 0.169230 ATCTCACGACACGAGCAGAC 59.831 55.000 0.00 0.00 0.00 3.51
143 144 1.794003 CTCACGACACGAGCAGACG 60.794 63.158 0.00 0.00 39.31 4.18
144 145 2.171489 CTCACGACACGAGCAGACGA 62.171 60.000 5.12 0.00 37.03 4.20
145 146 2.075489 CACGACACGAGCAGACGAC 61.075 63.158 5.12 0.00 37.03 4.34
146 147 2.251371 CGACACGAGCAGACGACA 59.749 61.111 5.12 0.00 37.03 4.35
147 148 1.794003 CGACACGAGCAGACGACAG 60.794 63.158 5.12 0.00 37.03 3.51
148 149 2.049985 ACACGAGCAGACGACAGC 60.050 61.111 5.12 0.00 37.03 4.40
149 150 2.807045 CACGAGCAGACGACAGCC 60.807 66.667 0.00 0.00 37.03 4.85
150 151 3.295273 ACGAGCAGACGACAGCCA 61.295 61.111 0.00 0.00 37.03 4.75
151 152 2.182791 CGAGCAGACGACAGCCAT 59.817 61.111 0.00 0.00 35.09 4.40
152 153 2.163390 CGAGCAGACGACAGCCATG 61.163 63.158 0.00 0.00 35.09 3.66
153 154 2.435586 AGCAGACGACAGCCATGC 60.436 61.111 0.00 0.00 37.15 4.06
154 155 2.743538 GCAGACGACAGCCATGCA 60.744 61.111 0.00 0.00 36.88 3.96
155 156 2.747822 GCAGACGACAGCCATGCAG 61.748 63.158 0.00 0.00 36.88 4.41
156 157 2.435586 AGACGACAGCCATGCAGC 60.436 61.111 0.00 0.00 0.00 5.25
157 158 2.743538 GACGACAGCCATGCAGCA 60.744 61.111 0.00 0.00 34.23 4.41
158 159 3.031964 GACGACAGCCATGCAGCAC 62.032 63.158 0.00 0.00 34.23 4.40
159 160 3.807538 CGACAGCCATGCAGCACC 61.808 66.667 0.00 0.00 34.23 5.01
160 161 2.360852 GACAGCCATGCAGCACCT 60.361 61.111 0.00 0.00 34.23 4.00
161 162 1.078214 GACAGCCATGCAGCACCTA 60.078 57.895 0.00 0.00 34.23 3.08
162 163 0.465097 GACAGCCATGCAGCACCTAT 60.465 55.000 0.00 0.00 34.23 2.57
163 164 0.839277 ACAGCCATGCAGCACCTATA 59.161 50.000 0.00 0.00 34.23 1.31
164 165 1.422781 ACAGCCATGCAGCACCTATAT 59.577 47.619 0.00 0.00 34.23 0.86
165 166 1.810755 CAGCCATGCAGCACCTATATG 59.189 52.381 0.00 0.00 34.23 1.78
166 167 1.701292 AGCCATGCAGCACCTATATGA 59.299 47.619 0.00 0.00 34.23 2.15
167 168 2.107031 AGCCATGCAGCACCTATATGAA 59.893 45.455 0.00 0.00 34.23 2.57
168 169 2.886523 GCCATGCAGCACCTATATGAAA 59.113 45.455 0.00 0.00 0.00 2.69
169 170 3.057736 GCCATGCAGCACCTATATGAAAG 60.058 47.826 0.00 0.00 0.00 2.62
170 171 4.139786 CCATGCAGCACCTATATGAAAGT 58.860 43.478 0.00 0.00 0.00 2.66
171 172 4.214971 CCATGCAGCACCTATATGAAAGTC 59.785 45.833 0.00 0.00 0.00 3.01
172 173 4.486125 TGCAGCACCTATATGAAAGTCA 57.514 40.909 0.00 0.00 0.00 3.41
173 174 4.445453 TGCAGCACCTATATGAAAGTCAG 58.555 43.478 0.00 0.00 0.00 3.51
174 175 4.080919 TGCAGCACCTATATGAAAGTCAGT 60.081 41.667 0.00 0.00 0.00 3.41
175 176 5.128663 TGCAGCACCTATATGAAAGTCAGTA 59.871 40.000 0.00 0.00 0.00 2.74
176 177 5.463724 GCAGCACCTATATGAAAGTCAGTAC 59.536 44.000 0.00 0.00 0.00 2.73
177 178 5.986135 CAGCACCTATATGAAAGTCAGTACC 59.014 44.000 0.00 0.00 0.00 3.34
178 179 5.661312 AGCACCTATATGAAAGTCAGTACCA 59.339 40.000 0.00 0.00 0.00 3.25
179 180 6.327626 AGCACCTATATGAAAGTCAGTACCAT 59.672 38.462 0.00 0.00 0.00 3.55
180 181 6.647067 GCACCTATATGAAAGTCAGTACCATC 59.353 42.308 0.00 0.00 0.00 3.51
181 182 7.155328 CACCTATATGAAAGTCAGTACCATCC 58.845 42.308 0.00 0.00 0.00 3.51
182 183 7.015682 CACCTATATGAAAGTCAGTACCATCCT 59.984 40.741 0.00 0.00 0.00 3.24
183 184 7.015682 ACCTATATGAAAGTCAGTACCATCCTG 59.984 40.741 0.00 0.00 0.00 3.86
184 185 6.814954 ATATGAAAGTCAGTACCATCCTGT 57.185 37.500 0.00 0.00 0.00 4.00
185 186 4.974645 TGAAAGTCAGTACCATCCTGTT 57.025 40.909 0.00 0.00 0.00 3.16
186 187 6.620877 ATGAAAGTCAGTACCATCCTGTTA 57.379 37.500 0.00 0.00 0.00 2.41
187 188 6.428083 TGAAAGTCAGTACCATCCTGTTAA 57.572 37.500 0.00 0.00 0.00 2.01
188 189 6.464222 TGAAAGTCAGTACCATCCTGTTAAG 58.536 40.000 0.00 0.00 0.00 1.85
189 190 5.422214 AAGTCAGTACCATCCTGTTAAGG 57.578 43.478 0.00 0.00 46.06 2.69
204 205 5.986501 TGTTAAGGACAGGTTTTGTTGTT 57.013 34.783 0.00 0.00 41.05 2.83
205 206 5.956642 TGTTAAGGACAGGTTTTGTTGTTC 58.043 37.500 0.00 0.00 41.05 3.18
206 207 5.477291 TGTTAAGGACAGGTTTTGTTGTTCA 59.523 36.000 0.00 0.00 41.05 3.18
207 208 6.153680 TGTTAAGGACAGGTTTTGTTGTTCAT 59.846 34.615 0.00 0.00 41.05 2.57
208 209 7.339721 TGTTAAGGACAGGTTTTGTTGTTCATA 59.660 33.333 0.00 0.00 41.05 2.15
209 210 6.976934 AAGGACAGGTTTTGTTGTTCATAT 57.023 33.333 0.00 0.00 41.05 1.78
210 211 6.331369 AGGACAGGTTTTGTTGTTCATATG 57.669 37.500 0.00 0.00 41.05 1.78
211 212 5.833131 AGGACAGGTTTTGTTGTTCATATGT 59.167 36.000 1.90 0.00 41.05 2.29
212 213 6.016276 AGGACAGGTTTTGTTGTTCATATGTC 60.016 38.462 1.90 0.00 41.05 3.06
213 214 6.238897 GGACAGGTTTTGTTGTTCATATGTCA 60.239 38.462 1.90 1.19 41.05 3.58
214 215 7.106439 ACAGGTTTTGTTGTTCATATGTCAA 57.894 32.000 1.90 7.21 36.31 3.18
215 216 7.202526 ACAGGTTTTGTTGTTCATATGTCAAG 58.797 34.615 13.28 5.53 36.31 3.02
216 217 6.642131 CAGGTTTTGTTGTTCATATGTCAAGG 59.358 38.462 13.28 0.00 0.00 3.61
217 218 5.925969 GGTTTTGTTGTTCATATGTCAAGGG 59.074 40.000 13.28 0.00 0.00 3.95
218 219 4.782019 TTGTTGTTCATATGTCAAGGGC 57.218 40.909 13.28 6.18 0.00 5.19
219 220 4.032960 TGTTGTTCATATGTCAAGGGCT 57.967 40.909 13.28 0.00 0.00 5.19
220 221 3.758023 TGTTGTTCATATGTCAAGGGCTG 59.242 43.478 13.28 0.00 0.00 4.85
221 222 3.003394 TGTTCATATGTCAAGGGCTGG 57.997 47.619 1.90 0.00 0.00 4.85
222 223 2.308570 TGTTCATATGTCAAGGGCTGGT 59.691 45.455 1.90 0.00 0.00 4.00
223 224 3.521531 TGTTCATATGTCAAGGGCTGGTA 59.478 43.478 1.90 0.00 0.00 3.25
224 225 4.018870 TGTTCATATGTCAAGGGCTGGTAA 60.019 41.667 1.90 0.00 0.00 2.85
225 226 4.422073 TCATATGTCAAGGGCTGGTAAG 57.578 45.455 1.90 0.00 0.00 2.34
226 227 3.136443 TCATATGTCAAGGGCTGGTAAGG 59.864 47.826 1.90 0.00 0.00 2.69
227 228 1.372501 ATGTCAAGGGCTGGTAAGGT 58.627 50.000 0.00 0.00 0.00 3.50
228 229 1.145571 TGTCAAGGGCTGGTAAGGTT 58.854 50.000 0.00 0.00 0.00 3.50
229 230 1.497286 TGTCAAGGGCTGGTAAGGTTT 59.503 47.619 0.00 0.00 0.00 3.27
230 231 2.091555 TGTCAAGGGCTGGTAAGGTTTT 60.092 45.455 0.00 0.00 0.00 2.43
231 232 2.296190 GTCAAGGGCTGGTAAGGTTTTG 59.704 50.000 0.00 0.00 0.00 2.44
232 233 1.000843 CAAGGGCTGGTAAGGTTTTGC 59.999 52.381 0.00 0.00 0.00 3.68
233 234 0.893727 AGGGCTGGTAAGGTTTTGCG 60.894 55.000 0.00 0.00 0.00 4.85
234 235 1.080772 GGCTGGTAAGGTTTTGCGC 60.081 57.895 0.00 0.00 0.00 6.09
235 236 1.442017 GCTGGTAAGGTTTTGCGCG 60.442 57.895 0.00 0.00 0.00 6.86
236 237 1.946267 CTGGTAAGGTTTTGCGCGT 59.054 52.632 8.43 0.00 0.00 6.01
237 238 0.309612 CTGGTAAGGTTTTGCGCGTT 59.690 50.000 8.43 0.00 0.00 4.84
238 239 0.029567 TGGTAAGGTTTTGCGCGTTG 59.970 50.000 8.43 0.00 0.00 4.10
295 296 5.850557 ATGTGATGATCGATCCCTCTATC 57.149 43.478 22.31 17.09 0.00 2.08
340 341 9.832445 CCAAAGCCTCTACTTTAGATATTTACA 57.168 33.333 0.00 0.00 37.78 2.41
483 484 5.068987 GGCTTACATATGGAAAATGCCTTCA 59.931 40.000 18.06 0.00 35.44 3.02
986 993 2.932614 GCGAGCAGAGCTGAAAAAGATA 59.067 45.455 0.85 0.00 39.88 1.98
1018 1026 6.183360 CCTGGAGATGAGATTTCTTTCTACGA 60.183 42.308 0.00 0.00 0.00 3.43
1216 1224 5.907207 TCGAGTCTATTCAGGAAGAATTGG 58.093 41.667 0.00 0.00 44.48 3.16
1218 1226 6.154534 TCGAGTCTATTCAGGAAGAATTGGAA 59.845 38.462 0.00 0.00 44.48 3.53
1332 1340 3.937814 AGAATCATTACCAACAGCACGA 58.062 40.909 0.00 0.00 0.00 4.35
1865 1879 3.891366 CGGCTCCATATTGATTTTTCCCT 59.109 43.478 0.00 0.00 0.00 4.20
2414 2429 3.385111 ACTCGCTTAATTCGGAAGAGGAT 59.615 43.478 0.00 0.00 43.69 3.24
2448 2463 8.560374 ACAGCTAAAGTGAGAAATAAACAACTC 58.440 33.333 0.00 0.00 0.00 3.01
2462 2477 1.416401 ACAACTCCTCGGAAAGCTTCA 59.584 47.619 0.00 0.00 0.00 3.02
2565 2581 4.782691 TCAAATATGAGGAGAACTGGGTGA 59.217 41.667 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.242076 ACTTGATTGAGTGCCAGCAC 58.758 50.000 14.91 14.91 46.50 4.40
7 8 2.038952 ACTACTTGATTGAGTGCCAGCA 59.961 45.455 0.00 0.00 0.00 4.41
8 9 2.704572 ACTACTTGATTGAGTGCCAGC 58.295 47.619 0.00 0.00 0.00 4.85
9 10 3.868077 GCTACTACTTGATTGAGTGCCAG 59.132 47.826 0.00 0.00 0.00 4.85
10 11 3.676049 CGCTACTACTTGATTGAGTGCCA 60.676 47.826 0.00 0.00 0.00 4.92
11 12 2.860735 CGCTACTACTTGATTGAGTGCC 59.139 50.000 0.00 0.00 0.00 5.01
12 13 2.282820 GCGCTACTACTTGATTGAGTGC 59.717 50.000 0.00 0.00 33.78 4.40
13 14 3.549471 CAGCGCTACTACTTGATTGAGTG 59.451 47.826 10.99 0.00 0.00 3.51
14 15 3.429547 CCAGCGCTACTACTTGATTGAGT 60.430 47.826 10.99 0.00 0.00 3.41
15 16 3.119291 CCAGCGCTACTACTTGATTGAG 58.881 50.000 10.99 0.00 0.00 3.02
16 17 2.738643 GCCAGCGCTACTACTTGATTGA 60.739 50.000 10.99 0.00 0.00 2.57
17 18 1.594862 GCCAGCGCTACTACTTGATTG 59.405 52.381 10.99 0.00 0.00 2.67
18 19 1.207089 TGCCAGCGCTACTACTTGATT 59.793 47.619 10.99 0.00 35.36 2.57
19 20 0.824109 TGCCAGCGCTACTACTTGAT 59.176 50.000 10.99 0.00 35.36 2.57
20 21 0.108804 GTGCCAGCGCTACTACTTGA 60.109 55.000 10.99 0.00 35.36 3.02
21 22 1.413767 CGTGCCAGCGCTACTACTTG 61.414 60.000 10.99 0.00 35.36 3.16
22 23 1.153823 CGTGCCAGCGCTACTACTT 60.154 57.895 10.99 0.00 35.36 2.24
23 24 2.267681 GACGTGCCAGCGCTACTACT 62.268 60.000 10.99 0.00 35.36 2.57
24 25 1.872679 GACGTGCCAGCGCTACTAC 60.873 63.158 10.99 8.37 35.36 2.73
25 26 2.337246 TGACGTGCCAGCGCTACTA 61.337 57.895 10.99 0.00 35.36 1.82
26 27 3.680786 TGACGTGCCAGCGCTACT 61.681 61.111 10.99 0.00 35.36 2.57
27 28 3.479269 GTGACGTGCCAGCGCTAC 61.479 66.667 10.99 6.05 35.36 3.58
28 29 3.626680 GAGTGACGTGCCAGCGCTA 62.627 63.158 10.99 0.00 35.36 4.26
32 33 4.664677 ACCGAGTGACGTGCCAGC 62.665 66.667 0.00 0.00 40.78 4.85
33 34 2.734723 CACCGAGTGACGTGCCAG 60.735 66.667 0.00 0.00 40.78 4.85
34 35 4.293648 CCACCGAGTGACGTGCCA 62.294 66.667 0.00 0.00 40.78 4.92
36 37 4.961511 TGCCACCGAGTGACGTGC 62.962 66.667 0.00 0.00 40.78 5.34
37 38 1.227999 AATTGCCACCGAGTGACGTG 61.228 55.000 0.00 0.00 40.78 4.49
38 39 0.534203 AAATTGCCACCGAGTGACGT 60.534 50.000 5.71 0.00 40.78 4.34
39 40 0.165944 GAAATTGCCACCGAGTGACG 59.834 55.000 5.71 0.00 42.18 4.35
40 41 1.464997 GAGAAATTGCCACCGAGTGAC 59.535 52.381 5.71 0.00 35.23 3.67
41 42 1.610624 GGAGAAATTGCCACCGAGTGA 60.611 52.381 5.71 0.00 35.23 3.41
42 43 0.804989 GGAGAAATTGCCACCGAGTG 59.195 55.000 0.00 0.00 0.00 3.51
43 44 0.693049 AGGAGAAATTGCCACCGAGT 59.307 50.000 0.00 0.00 0.00 4.18
44 45 1.826385 AAGGAGAAATTGCCACCGAG 58.174 50.000 0.00 0.00 0.00 4.63
45 46 2.355716 CCTAAGGAGAAATTGCCACCGA 60.356 50.000 0.00 0.00 0.00 4.69
46 47 2.017049 CCTAAGGAGAAATTGCCACCG 58.983 52.381 0.00 0.00 0.00 4.94
47 48 1.751351 GCCTAAGGAGAAATTGCCACC 59.249 52.381 0.00 0.00 0.00 4.61
48 49 1.401905 CGCCTAAGGAGAAATTGCCAC 59.598 52.381 0.00 0.00 0.00 5.01
49 50 1.750193 CGCCTAAGGAGAAATTGCCA 58.250 50.000 0.00 0.00 0.00 4.92
50 51 0.382158 GCGCCTAAGGAGAAATTGCC 59.618 55.000 0.00 0.00 0.00 4.52
51 52 1.094785 TGCGCCTAAGGAGAAATTGC 58.905 50.000 4.18 0.00 0.00 3.56
52 53 2.684881 ACATGCGCCTAAGGAGAAATTG 59.315 45.455 4.18 0.00 0.00 2.32
53 54 2.945668 GACATGCGCCTAAGGAGAAATT 59.054 45.455 4.18 0.00 0.00 1.82
54 55 2.171448 AGACATGCGCCTAAGGAGAAAT 59.829 45.455 4.18 0.00 0.00 2.17
55 56 1.555075 AGACATGCGCCTAAGGAGAAA 59.445 47.619 4.18 0.00 0.00 2.52
56 57 1.137086 GAGACATGCGCCTAAGGAGAA 59.863 52.381 4.18 0.00 0.00 2.87
57 58 0.747255 GAGACATGCGCCTAAGGAGA 59.253 55.000 4.18 0.00 0.00 3.71
58 59 0.461548 TGAGACATGCGCCTAAGGAG 59.538 55.000 4.18 0.00 0.00 3.69
59 60 0.461548 CTGAGACATGCGCCTAAGGA 59.538 55.000 4.18 0.00 0.00 3.36
60 61 1.156645 GCTGAGACATGCGCCTAAGG 61.157 60.000 4.18 0.00 0.00 2.69
61 62 0.460811 TGCTGAGACATGCGCCTAAG 60.461 55.000 4.18 0.00 0.00 2.18
62 63 0.036483 TTGCTGAGACATGCGCCTAA 60.036 50.000 4.18 0.00 0.00 2.69
63 64 0.740868 GTTGCTGAGACATGCGCCTA 60.741 55.000 4.18 0.00 0.00 3.93
64 65 2.037136 GTTGCTGAGACATGCGCCT 61.037 57.895 4.18 0.00 0.00 5.52
65 66 2.327343 TGTTGCTGAGACATGCGCC 61.327 57.895 4.18 0.00 0.00 6.53
66 67 1.154338 GTGTTGCTGAGACATGCGC 60.154 57.895 0.00 0.00 0.00 6.09
67 68 0.587768 TTGTGTTGCTGAGACATGCG 59.412 50.000 0.00 0.00 30.81 4.73
68 69 2.780065 TTTGTGTTGCTGAGACATGC 57.220 45.000 0.00 0.00 30.81 4.06
69 70 3.038017 CGTTTTGTGTTGCTGAGACATG 58.962 45.455 0.00 0.00 30.81 3.21
70 71 2.942376 TCGTTTTGTGTTGCTGAGACAT 59.058 40.909 0.00 0.00 30.81 3.06
71 72 2.351418 CTCGTTTTGTGTTGCTGAGACA 59.649 45.455 0.00 0.00 0.00 3.41
72 73 2.286418 CCTCGTTTTGTGTTGCTGAGAC 60.286 50.000 0.00 0.00 0.00 3.36
73 74 1.939934 CCTCGTTTTGTGTTGCTGAGA 59.060 47.619 0.00 0.00 0.00 3.27
74 75 1.002468 CCCTCGTTTTGTGTTGCTGAG 60.002 52.381 0.00 0.00 0.00 3.35
75 76 1.021202 CCCTCGTTTTGTGTTGCTGA 58.979 50.000 0.00 0.00 0.00 4.26
76 77 0.738389 ACCCTCGTTTTGTGTTGCTG 59.262 50.000 0.00 0.00 0.00 4.41
77 78 1.470051 AACCCTCGTTTTGTGTTGCT 58.530 45.000 0.00 0.00 0.00 3.91
78 79 2.190161 GAAACCCTCGTTTTGTGTTGC 58.810 47.619 0.00 0.00 42.34 4.17
79 80 2.446282 CGAAACCCTCGTTTTGTGTTG 58.554 47.619 0.00 0.00 42.34 3.33
80 81 2.836479 CGAAACCCTCGTTTTGTGTT 57.164 45.000 0.00 0.00 42.34 3.32
90 91 2.360165 TCCTATAACGAGCGAAACCCTC 59.640 50.000 0.00 0.00 0.00 4.30
91 92 2.100418 GTCCTATAACGAGCGAAACCCT 59.900 50.000 0.00 0.00 0.00 4.34
92 93 2.100418 AGTCCTATAACGAGCGAAACCC 59.900 50.000 0.00 0.00 0.00 4.11
93 94 3.433513 AGTCCTATAACGAGCGAAACC 57.566 47.619 0.00 0.00 0.00 3.27
94 95 4.264849 GTCAAGTCCTATAACGAGCGAAAC 59.735 45.833 0.00 0.00 0.00 2.78
95 96 4.418392 GTCAAGTCCTATAACGAGCGAAA 58.582 43.478 0.00 0.00 0.00 3.46
96 97 3.181493 GGTCAAGTCCTATAACGAGCGAA 60.181 47.826 0.00 0.00 0.00 4.70
97 98 2.357009 GGTCAAGTCCTATAACGAGCGA 59.643 50.000 0.00 0.00 0.00 4.93
98 99 2.098607 TGGTCAAGTCCTATAACGAGCG 59.901 50.000 0.00 0.00 0.00 5.03
99 100 3.795623 TGGTCAAGTCCTATAACGAGC 57.204 47.619 0.00 0.00 0.00 5.03
100 101 5.475719 TGTTTGGTCAAGTCCTATAACGAG 58.524 41.667 0.00 0.00 0.00 4.18
101 102 5.471556 TGTTTGGTCAAGTCCTATAACGA 57.528 39.130 0.00 0.00 0.00 3.85
102 103 6.106673 AGATGTTTGGTCAAGTCCTATAACG 58.893 40.000 0.00 0.00 0.00 3.18
103 104 7.064728 GTGAGATGTTTGGTCAAGTCCTATAAC 59.935 40.741 0.00 0.00 0.00 1.89
104 105 7.103641 GTGAGATGTTTGGTCAAGTCCTATAA 58.896 38.462 0.00 0.00 0.00 0.98
105 106 6.627287 CGTGAGATGTTTGGTCAAGTCCTATA 60.627 42.308 0.00 0.00 0.00 1.31
106 107 5.491982 GTGAGATGTTTGGTCAAGTCCTAT 58.508 41.667 0.00 0.00 0.00 2.57
107 108 4.560716 CGTGAGATGTTTGGTCAAGTCCTA 60.561 45.833 0.00 0.00 0.00 2.94
108 109 3.744660 GTGAGATGTTTGGTCAAGTCCT 58.255 45.455 0.00 0.00 0.00 3.85
109 110 2.480419 CGTGAGATGTTTGGTCAAGTCC 59.520 50.000 0.00 0.00 0.00 3.85
110 111 3.184581 GTCGTGAGATGTTTGGTCAAGTC 59.815 47.826 0.00 0.00 45.19 3.01
111 112 3.131396 GTCGTGAGATGTTTGGTCAAGT 58.869 45.455 0.00 0.00 45.19 3.16
112 113 3.059597 GTGTCGTGAGATGTTTGGTCAAG 60.060 47.826 0.00 0.00 45.19 3.02
113 114 2.869801 GTGTCGTGAGATGTTTGGTCAA 59.130 45.455 0.00 0.00 45.19 3.18
114 115 2.479837 GTGTCGTGAGATGTTTGGTCA 58.520 47.619 0.00 0.00 45.19 4.02
115 116 1.455786 CGTGTCGTGAGATGTTTGGTC 59.544 52.381 0.00 0.00 45.19 4.02
116 117 1.067974 TCGTGTCGTGAGATGTTTGGT 59.932 47.619 0.00 0.00 45.19 3.67
117 118 1.721389 CTCGTGTCGTGAGATGTTTGG 59.279 52.381 0.00 0.00 45.19 3.28
118 119 1.125021 GCTCGTGTCGTGAGATGTTTG 59.875 52.381 0.00 0.00 45.19 2.93
119 120 1.269569 TGCTCGTGTCGTGAGATGTTT 60.270 47.619 0.00 0.00 45.19 2.83
120 121 0.313987 TGCTCGTGTCGTGAGATGTT 59.686 50.000 0.00 0.00 45.19 2.71
121 122 0.109551 CTGCTCGTGTCGTGAGATGT 60.110 55.000 0.00 0.00 45.19 3.06
122 123 0.169009 TCTGCTCGTGTCGTGAGATG 59.831 55.000 0.00 0.00 45.19 2.90
123 124 0.169230 GTCTGCTCGTGTCGTGAGAT 59.831 55.000 0.00 0.00 45.19 2.75
124 125 1.574925 GTCTGCTCGTGTCGTGAGA 59.425 57.895 0.00 0.00 35.43 3.27
125 126 1.794003 CGTCTGCTCGTGTCGTGAG 60.794 63.158 0.00 0.00 36.53 3.51
126 127 2.248835 TCGTCTGCTCGTGTCGTGA 61.249 57.895 0.00 0.00 0.00 4.35
127 128 2.075489 GTCGTCTGCTCGTGTCGTG 61.075 63.158 0.00 0.00 0.00 4.35
128 129 2.251667 GTCGTCTGCTCGTGTCGT 59.748 61.111 0.00 0.00 0.00 4.34
129 130 1.794003 CTGTCGTCTGCTCGTGTCG 60.794 63.158 0.00 0.00 0.00 4.35
130 131 2.083522 GCTGTCGTCTGCTCGTGTC 61.084 63.158 4.40 0.00 35.98 3.67
131 132 2.049985 GCTGTCGTCTGCTCGTGT 60.050 61.111 4.40 0.00 35.98 4.49
132 133 2.807045 GGCTGTCGTCTGCTCGTG 60.807 66.667 10.86 0.00 38.34 4.35
133 134 2.640302 ATGGCTGTCGTCTGCTCGT 61.640 57.895 10.86 1.43 38.34 4.18
134 135 2.163390 CATGGCTGTCGTCTGCTCG 61.163 63.158 10.86 0.00 38.34 5.03
135 136 2.459442 GCATGGCTGTCGTCTGCTC 61.459 63.158 10.86 3.11 38.34 4.26
136 137 2.435586 GCATGGCTGTCGTCTGCT 60.436 61.111 10.86 0.00 38.34 4.24
137 138 2.743538 TGCATGGCTGTCGTCTGC 60.744 61.111 3.06 3.06 37.71 4.26
138 139 2.747822 GCTGCATGGCTGTCGTCTG 61.748 63.158 0.00 0.00 0.00 3.51
139 140 2.435586 GCTGCATGGCTGTCGTCT 60.436 61.111 0.00 0.00 0.00 4.18
140 141 2.743538 TGCTGCATGGCTGTCGTC 60.744 61.111 0.00 0.00 0.00 4.20
141 142 3.052082 GTGCTGCATGGCTGTCGT 61.052 61.111 5.27 0.00 0.00 4.34
142 143 2.857575 TAGGTGCTGCATGGCTGTCG 62.858 60.000 5.27 0.00 0.00 4.35
143 144 0.465097 ATAGGTGCTGCATGGCTGTC 60.465 55.000 5.27 0.00 0.00 3.51
144 145 0.839277 TATAGGTGCTGCATGGCTGT 59.161 50.000 5.27 0.00 0.00 4.40
145 146 1.810755 CATATAGGTGCTGCATGGCTG 59.189 52.381 5.27 0.00 0.00 4.85
146 147 1.701292 TCATATAGGTGCTGCATGGCT 59.299 47.619 5.27 0.00 0.00 4.75
147 148 2.189594 TCATATAGGTGCTGCATGGC 57.810 50.000 5.27 0.00 0.00 4.40
148 149 4.139786 ACTTTCATATAGGTGCTGCATGG 58.860 43.478 5.27 0.00 0.00 3.66
149 150 4.818005 TGACTTTCATATAGGTGCTGCATG 59.182 41.667 5.27 0.00 0.00 4.06
150 151 5.039920 TGACTTTCATATAGGTGCTGCAT 57.960 39.130 5.27 0.00 0.00 3.96
151 152 4.080919 ACTGACTTTCATATAGGTGCTGCA 60.081 41.667 0.00 0.00 0.00 4.41
152 153 4.446371 ACTGACTTTCATATAGGTGCTGC 58.554 43.478 0.00 0.00 0.00 5.25
153 154 5.986135 GGTACTGACTTTCATATAGGTGCTG 59.014 44.000 0.00 0.00 0.00 4.41
154 155 5.661312 TGGTACTGACTTTCATATAGGTGCT 59.339 40.000 0.00 0.00 0.00 4.40
155 156 5.914033 TGGTACTGACTTTCATATAGGTGC 58.086 41.667 0.00 0.00 0.00 5.01
156 157 7.015682 AGGATGGTACTGACTTTCATATAGGTG 59.984 40.741 0.00 0.00 0.00 4.00
157 158 7.015682 CAGGATGGTACTGACTTTCATATAGGT 59.984 40.741 0.00 0.00 38.20 3.08
158 159 7.015682 ACAGGATGGTACTGACTTTCATATAGG 59.984 40.741 0.00 0.00 43.62 2.57
159 160 7.957002 ACAGGATGGTACTGACTTTCATATAG 58.043 38.462 0.00 0.00 43.62 1.31
160 161 7.914427 ACAGGATGGTACTGACTTTCATATA 57.086 36.000 0.00 0.00 43.62 0.86
161 162 6.814954 ACAGGATGGTACTGACTTTCATAT 57.185 37.500 0.00 0.00 43.62 1.78
162 163 6.620877 AACAGGATGGTACTGACTTTCATA 57.379 37.500 0.00 0.00 43.62 2.15
163 164 5.505181 AACAGGATGGTACTGACTTTCAT 57.495 39.130 0.00 0.00 43.62 2.57
164 165 4.974645 AACAGGATGGTACTGACTTTCA 57.025 40.909 0.00 0.00 43.62 2.69
165 166 5.875359 CCTTAACAGGATGGTACTGACTTTC 59.125 44.000 0.00 0.00 38.52 2.62
166 167 5.546499 TCCTTAACAGGATGGTACTGACTTT 59.454 40.000 0.00 0.00 45.20 2.66
167 168 5.091552 TCCTTAACAGGATGGTACTGACTT 58.908 41.667 0.00 0.00 45.20 3.01
168 169 4.684724 TCCTTAACAGGATGGTACTGACT 58.315 43.478 0.00 0.00 45.20 3.41
182 183 5.477291 TGAACAACAAAACCTGTCCTTAACA 59.523 36.000 0.00 0.00 37.23 2.41
183 184 5.956642 TGAACAACAAAACCTGTCCTTAAC 58.043 37.500 0.00 0.00 37.23 2.01
184 185 6.783708 ATGAACAACAAAACCTGTCCTTAA 57.216 33.333 0.00 0.00 37.23 1.85
185 186 7.504238 ACATATGAACAACAAAACCTGTCCTTA 59.496 33.333 10.38 0.00 37.23 2.69
186 187 6.323739 ACATATGAACAACAAAACCTGTCCTT 59.676 34.615 10.38 0.00 37.23 3.36
187 188 5.833131 ACATATGAACAACAAAACCTGTCCT 59.167 36.000 10.38 0.00 37.23 3.85
188 189 6.084326 ACATATGAACAACAAAACCTGTCC 57.916 37.500 10.38 0.00 37.23 4.02
189 190 6.734137 TGACATATGAACAACAAAACCTGTC 58.266 36.000 10.38 0.00 37.23 3.51
190 191 6.707440 TGACATATGAACAACAAAACCTGT 57.293 33.333 10.38 0.00 41.27 4.00
191 192 6.642131 CCTTGACATATGAACAACAAAACCTG 59.358 38.462 10.38 2.04 0.00 4.00
192 193 6.239289 CCCTTGACATATGAACAACAAAACCT 60.239 38.462 10.38 0.00 0.00 3.50
193 194 5.925969 CCCTTGACATATGAACAACAAAACC 59.074 40.000 10.38 0.00 0.00 3.27
194 195 5.405269 GCCCTTGACATATGAACAACAAAAC 59.595 40.000 10.38 0.00 0.00 2.43
195 196 5.304101 AGCCCTTGACATATGAACAACAAAA 59.696 36.000 10.38 0.00 0.00 2.44
196 197 4.832266 AGCCCTTGACATATGAACAACAAA 59.168 37.500 10.38 0.00 0.00 2.83
197 198 4.218200 CAGCCCTTGACATATGAACAACAA 59.782 41.667 10.38 6.76 0.00 2.83
198 199 3.758023 CAGCCCTTGACATATGAACAACA 59.242 43.478 10.38 0.00 0.00 3.33
199 200 3.129287 CCAGCCCTTGACATATGAACAAC 59.871 47.826 10.38 4.53 0.00 3.32
200 201 3.245229 ACCAGCCCTTGACATATGAACAA 60.245 43.478 10.38 13.46 0.00 2.83
201 202 2.308570 ACCAGCCCTTGACATATGAACA 59.691 45.455 10.38 6.49 0.00 3.18
202 203 3.004752 ACCAGCCCTTGACATATGAAC 57.995 47.619 10.38 3.82 0.00 3.18
203 204 4.385199 CCTTACCAGCCCTTGACATATGAA 60.385 45.833 10.38 0.00 0.00 2.57
204 205 3.136443 CCTTACCAGCCCTTGACATATGA 59.864 47.826 10.38 0.00 0.00 2.15
205 206 3.117888 ACCTTACCAGCCCTTGACATATG 60.118 47.826 0.00 0.00 0.00 1.78
206 207 3.123273 ACCTTACCAGCCCTTGACATAT 58.877 45.455 0.00 0.00 0.00 1.78
207 208 2.557869 ACCTTACCAGCCCTTGACATA 58.442 47.619 0.00 0.00 0.00 2.29
208 209 1.372501 ACCTTACCAGCCCTTGACAT 58.627 50.000 0.00 0.00 0.00 3.06
209 210 1.145571 AACCTTACCAGCCCTTGACA 58.854 50.000 0.00 0.00 0.00 3.58
210 211 2.287977 AAACCTTACCAGCCCTTGAC 57.712 50.000 0.00 0.00 0.00 3.18
211 212 2.593026 CAAAACCTTACCAGCCCTTGA 58.407 47.619 0.00 0.00 0.00 3.02
212 213 1.000843 GCAAAACCTTACCAGCCCTTG 59.999 52.381 0.00 0.00 0.00 3.61
213 214 1.338107 GCAAAACCTTACCAGCCCTT 58.662 50.000 0.00 0.00 0.00 3.95
214 215 0.893727 CGCAAAACCTTACCAGCCCT 60.894 55.000 0.00 0.00 0.00 5.19
215 216 1.584495 CGCAAAACCTTACCAGCCC 59.416 57.895 0.00 0.00 0.00 5.19
216 217 1.080772 GCGCAAAACCTTACCAGCC 60.081 57.895 0.30 0.00 0.00 4.85
217 218 1.442017 CGCGCAAAACCTTACCAGC 60.442 57.895 8.75 0.00 0.00 4.85
218 219 0.309612 AACGCGCAAAACCTTACCAG 59.690 50.000 5.73 0.00 0.00 4.00
219 220 0.029567 CAACGCGCAAAACCTTACCA 59.970 50.000 5.73 0.00 0.00 3.25
220 221 0.029700 ACAACGCGCAAAACCTTACC 59.970 50.000 5.73 0.00 0.00 2.85
221 222 2.666836 TACAACGCGCAAAACCTTAC 57.333 45.000 5.73 0.00 0.00 2.34
222 223 3.068560 AGATACAACGCGCAAAACCTTA 58.931 40.909 5.73 0.00 0.00 2.69
223 224 1.877443 AGATACAACGCGCAAAACCTT 59.123 42.857 5.73 0.00 0.00 3.50
224 225 1.519408 AGATACAACGCGCAAAACCT 58.481 45.000 5.73 0.00 0.00 3.50
225 226 2.222953 CCTAGATACAACGCGCAAAACC 60.223 50.000 5.73 0.00 0.00 3.27
226 227 2.414138 ACCTAGATACAACGCGCAAAAC 59.586 45.455 5.73 0.00 0.00 2.43
227 228 2.690786 ACCTAGATACAACGCGCAAAA 58.309 42.857 5.73 0.00 0.00 2.44
228 229 2.373540 ACCTAGATACAACGCGCAAA 57.626 45.000 5.73 0.00 0.00 3.68
229 230 2.373540 AACCTAGATACAACGCGCAA 57.626 45.000 5.73 0.00 0.00 4.85
230 231 3.551454 GGATAACCTAGATACAACGCGCA 60.551 47.826 5.73 0.00 0.00 6.09
231 232 2.985139 GGATAACCTAGATACAACGCGC 59.015 50.000 5.73 0.00 0.00 6.86
232 233 4.500603 AGGATAACCTAGATACAACGCG 57.499 45.455 3.53 3.53 45.83 6.01
295 296 7.872483 GGCTTTGGTATAAACATAAATCCCATG 59.128 37.037 0.00 0.00 0.00 3.66
483 484 3.689347 TGTGCATTGGTAGCTTCAAGAT 58.311 40.909 0.00 0.00 0.00 2.40
1216 1224 7.807680 ACTTCGTTAGGATTGAAGAATTGTTC 58.192 34.615 8.35 8.35 41.21 3.18
1218 1226 8.842358 TTACTTCGTTAGGATTGAAGAATTGT 57.158 30.769 8.08 0.00 41.21 2.71
2414 2429 5.190992 TCTCACTTTAGCTGTTGTCGTTA 57.809 39.130 0.00 0.00 0.00 3.18
2448 2463 2.481952 CTCAAACTGAAGCTTTCCGAGG 59.518 50.000 0.00 0.00 0.00 4.63
2462 2477 3.380004 TCATCAAAACCAACGCTCAAACT 59.620 39.130 0.00 0.00 0.00 2.66


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.